-
1
-
-
33845346092
-
The ribosome and the mechanism of protein synthesis
-
Frank, J. & Spahn, C. M. The ribosome and the mechanism of protein synthesis. Rep. Prog. Phys. 69, 1383-1417 (2006).
-
(2006)
Rep. Prog. Phys.
, vol.69
, pp. 1383-1417
-
-
Frank, J.1
Spahn, C.M.2
-
2
-
-
70350654363
-
What recent ribosome structures have revealed about the mechanism of translation
-
Schmeing, T. M. & Ramakrishnan, V. What recent ribosome structures have revealed about the mechanism of translation. Nature 461, 1234-1242 (2009).
-
(2009)
Nature
, vol.461
, pp. 1234-1242
-
-
Schmeing, T.M.1
Ramakrishnan, V.2
-
3
-
-
65249132345
-
Ribosomal translocation: One step closerto the molecular mechanism
-
Shoji, S., Walker, S. E. &Fredrick, K. Ribosomal translocation: one step closerto the molecular mechanism. ACS Chem. Biol. 4, 93-107 (2009).
-
(2009)
ACS Chem. Biol.
, vol.4
, pp. 93-107
-
-
Shoji, S.1
Walker, S.E.2
Fredrick, K.3
-
4
-
-
0037154986
-
Ribosome structureandthe mechanism of translation
-
Ramakrishnan,V.Ribosome structureandthe mechanismoftranslation. Cell108, 557-572 (2002).
-
(2002)
Cell
, vol.108
, pp. 557-572
-
-
Ramakrishnan, V.1
-
5
-
-
0024458904
-
Intermediate states in the movement of transfer RNA in the ribosome
-
Moazed, D. & Noller, H. F. Intermediate states in the movement of transfer RNA in the ribosome. Nature 342, 142-148 (1989).
-
(1989)
Nature
, vol.342
, pp. 142-148
-
-
Moazed, D.1
Noller, H.F.2
-
6
-
-
33847051154
-
Identification of two distincthybridstate intermediatesontheribosome
-
Munro, J. B., Altman, R. B., O'Connor, N. & Blanchard, S. C. Identification of two distincthybridstate intermediatesontheribosome.Mol.Cell25, 505-517(2007).
-
(2007)
Mol.Cell
, vol.25
, pp. 505-517
-
-
Munro, J.B.1
Altman, R.B.2
O'Connor, N.3
Blanchard, S.C.4
-
7
-
-
4444313551
-
TRNA dynamics on the ribosome during translation
-
Blanchard, S. C. et al. tRNA dynamics on the ribosome during translation. Proc. Natl Acad. Sci. USA 101, 12893-12898 (2004).
-
(2004)
Proc. Natl Acad. Sci. USA
, vol.101
, pp. 12893-12898
-
-
Blanchard, S.C.1
-
8
-
-
68349096239
-
Navigating the ribosome'smetastable energy landscape
-
Munro,J. B., Sanbonmatsu, K. Y., Spahn,C.M. & Blanchard,S.C. Navigating the ribosome'smetastable energy landscape.TrendsBiochem. Sci. 34, 390-400 (2009).
-
(2009)
TrendsBiochem. Sci.
, vol.34
, pp. 390-400
-
-
Munroj., B.1
Sanbonmatsu, K.Y.2
Spahn, C.M.3
Blanchard, S.C.4
-
9
-
-
54049116765
-
Visualization ofthe hybrid state oftRNA binding promoted by spontaneous ratcheting of the ribosome
-
Agirrezabala, X. et al. Visualization ofthe hybrid state oftRNA binding promoted by spontaneous ratcheting of the ribosome. Mol. Cell 32, 190-197 (2008).
-
(2008)
Mol. Cell
, vol.32
, pp. 190-197
-
-
Agirrezabala, X.1
-
10
-
-
55949134736
-
Structure of ratcheted ribosomes with tRNAs in hybrid states
-
Julian, P. et al. Structure of ratcheted ribosomes with tRNAs in hybrid states. Proc. Natl Acad. Sci. USA 105, 16924-16927 (2008).
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 16924-16927
-
-
Julian, P.1
-
11
-
-
77954650144
-
Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy
-
Fischer, N. et al. Ribosome dynamics and tRNA movement by time-resolved electron cryomicroscopy. Nature 466, 329-333 (2010).
-
(2010)
Nature
, vol.466
, pp. 329-333
-
-
Fischer, N.1
-
12
-
-
0037963475
-
Locking and unlocking of ribosomal motions
-
Valle, M. et al. Locking and unlocking of ribosomal motions. Cell 114, 123-134 (2003).
-
(2003)
Cell
, vol.114
, pp. 123-134
-
-
Valle, M.1
-
13
-
-
0034691576
-
A ratchet-like inter-subunit reorganization of the ribosome during translocation
-
Frank, J. & Agrawal, R. K. A ratchet-like inter-subunit reorganization of the ribosome during translocation. Nature 406, 318-322 (2000).
-
(2000)
Nature
, vol.406
, pp. 318-322
-
-
Frank, J.1
Agrawal, R.K.2
-
14
-
-
33847358277
-
Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors
-
Connell, S. R. et al. Structural basis for interaction of the ribosome with the switch regions of GTP-bound elongation factors. Mol. Cell 25, 751-764 (2007).
-
(2007)
Mol. Cell
, vol.25
, pp. 751-764
-
-
Connell, S.R.1
-
15
-
-
1842576803
-
Domainm ovements of elongati on factor eEF2 andthe eukaryotic 80S ribosome facilitate tRNA translocation
-
Spahn, C. M. et al. Domainm ovements of elongati on factor eEF2 andthe eukaryotic 80S ribosome facilitate tRNA translocation. EMBO J. 23, 1008-1019 (2004).
-
(2004)
EMBO J.
, vol.23
, pp. 1008-1019
-
-
Spahn, C.M.1
-
16
-
-
69249112231
-
Structures of the ribosome in intermediate states of ratcheting
-
Zhang, W., Dunkle, J. A. & Cate, J. H. Structures of the ribosome in intermediate states of ratcheting. Science 325, 1014-1017 (2009).
-
(2009)
Science
, vol.325
, pp. 1014-1017
-
-
Zhang, W.1
Dunkle, J.A.2
Cate, J.H.3
-
17
-
-
0031028688
-
Hydrolysis of GTP by elongation factor G drives tRNA movement on the ribosome
-
Rodnina, M., Savelsbergh, A., Katunin, V. I. & Wintermeyer, W. Hydrolysis of GTP by elongation factor G drives tRNA movement on the ribosome. Nature 385, 37-41 (1997).
-
(1997)
Nature
, vol.385
, pp. 37-41
-
-
Rodnina, M.1
Savelsbergh, A.2
Katunin, V.I.3
Wintermeyer, W.4
-
18
-
-
0038433302
-
An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation
-
Savelsbergh, A. et al. An elongation factor G-induced ribosome rearrangement precedes tRNA-mRNA translocation. Mol. Cell 11, 1517-1523 (2003).
-
(2003)
Mol. Cell
, vol.11
, pp. 1517-1523
-
-
Savelsbergh, A.1
-
19
-
-
70350602056
-
The structure of the ribosome with elongation factor G trapped in the posttranslocational state
-
Gao, Y. G. et al. The structure of the ribosome with elongation factor G trapped in the posttranslocational state. Science 326, 694-699 (2009).
-
(2009)
Science
, vol.326
, pp. 694-699
-
-
Gao, Y.G.1
-
20
-
-
33646042904
-
A method offocused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation
-
Penczek, P. A., Frank, J. &Spahn, C. M. A method offocused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation. J. Struct. Biol. 154, 184-194 (2006).
-
(2006)
J. Struct. Biol.
, vol.154
, pp. 184-194
-
-
Penczek, P.A.1
Frank, J.2
Spahn, C.M.3
-
21
-
-
0032982866
-
EF-G-dependent GTP hydrolysis induces translocation accompanied by largecon for mational changes in the70S ribosome
-
Agrawal, R. K. et al. EF-G-dependent GTP hydrolysis induces translocation accompanied by largecon for mational changes in the70S ribosome.NatureStruct. Biol. 6, 643-647 (1999).
-
(1999)
Nature Struct Biol.
, vol.6
, pp. 643-647
-
-
Agrawal, R.K.1
-
22
-
-
33845939047
-
Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization
-
Scheres, S. H. et al. Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization. Nature Methods 4, 27-29 (2007).
-
(2007)
Nature Methods
, vol.4
, pp. 27-29
-
-
Scheres, S.H.1
-
23
-
-
0035670662
-
Elongation factor G-induced structural chang einhelix 34 of 16S rRNA related to trans location on the ribosome
-
Matassova, A. B., Rodnina, M. V. & Wintermeyer, W. Elongation factor G-induced structural chang einhelix 34 of 16S rRNA related to trans location on the ribosome. RNA 7, 1879-1885 (2001).
-
(2001)
RNA
, vol.7
, pp. 1879-1885
-
-
Matassova, A.B.1
Rodnina, M.V.2
Wintermeyer, W.3
-
24
-
-
67651158789
-
Conformational changesins witch i of EF-G drive its directional cycling on and off the ribosome
-
Ticu, C. et al. Conformational changesins witch I of EF-G drive its directional cycling on and off the ribosome. EMBO J. 28, 2053-2065 (2009).
-
(2009)
EMBO J.
, vol.28
, pp. 2053-2065
-
-
Ticu, C.1
-
25
-
-
67651178174
-
The ribosome as a conveying thermal ratchet machine
-
Spirin, A. S. The ribosome as a conveying thermal ratchet machine. J. Biol. Chem. 284, 21103-21119 (2009).
-
(2009)
J. Biol. Chem.
, vol.284
, pp. 21103-21119
-
-
Spirin, A.S.1
-
26
-
-
62649162306
-
GTPase activation of elongation factor EF-Tu by the ribosome during decoding
-
Schuette, J. C. et al. GTPase activation of elongation factor EF-Tu by the ribosome during decoding. EMBO J. 28, 755-765 (2009).
-
(2009)
EMBO J.
, vol.28
, pp. 755-765
-
-
Schuette, J.C.1
-
27
-
-
77952717308
-
Accommodation of aminoacyl-tRN Aint ot heri bosomeinvolves reversible excursions along multiple pathways
-
Whitford, P. C. et al. Accommodation of aminoacyl-tRN Aint ot heri bosomeinvolves reversible excursions along multiple pathways. RNA 16, 1196-1204 (2010).
-
(2010)
RNA
, vol.16
, pp. 1196-1204
-
-
Whitford, P.C.1
-
28
-
-
20844460290
-
Interaction of Era with the 30S ribosomal subunit implications for 30S subunit assembly
-
Sharma, M. R. et al. Interaction of Era with the 30S ribosomal subunit implications for 30S subunit assembly. Mol. Cell 18, 319-329 (2005).
-
(2005)
Mol. Cell
, vol.18
, pp. 319-329
-
-
Sharma, M.R.1
-
29
-
-
0035805213
-
Crystal structure of the ribosome at 5.5A resolution
-
Yusupov, M. M. et al. Crystal structure of the ribosome at 5.5A resolution. Science 292, 883-896 (2001).
-
(2001)
Science
, vol.292
, pp. 883-896
-
-
Yusupov, M.M.1
-
30
-
-
0038441501
-
Accurate determinationof local defocus and specimen tilt in electron microscopy
-
Mindell, J. A. &Grigorieff, N. Accurate determinationof local defocus and specimen tilt in electron microscopy. J. Struct. Biol. 142, 334-347 (2003).
-
(2003)
J. Struct. Biol.
, vol.142
, pp. 334-347
-
-
Mindell, J.A.1
Grigorieff, N.2
-
31
-
-
33845449481
-
SIGNATURE: A single-particle selection system for molecular electron microscopy
-
Chen, J. Z. & Grigorieff, N. SIGNATURE: a single-particle selection system for molecular electron microscopy. J. Struct. Biol. 157, 168-173 (2006).
-
(2006)
J. Struct. Biol.
, vol.157
, pp. 168-173
-
-
Chen, J.Z.1
Grigorieff, N.2
-
32
-
-
0029975088
-
SPIDER and WEB: Processing and visualization of images in 3D electron microscopy and related fields
-
Frank, J. et al. SPIDER and WEB: processing and visualization of images in 3D electron microscopy and related fields. J. Struct. Biol. 116, 190-199 (1996).
-
(1996)
J. Struct. Biol.
, vol.116
, pp. 190-199
-
-
Frank, J.1
-
33
-
-
33749354360
-
Structure of the 70S ribosome complexed with mRNA and tRNA
-
Selmer, M. et al. Structure of the 70S ribosome complexed with mRNA and tRNA. Science 313, 1935-1942 (2006).
-
(2006)
Science
, vol.313
, pp. 1935-1942
-
-
Selmer, M.1
-
34
-
-
70349884311
-
Exploring conformational modes of macro molecular assemblies by multiparticle cryo-EM
-
Spahn, C. M. &Penczek, P. A. Exploring conformational modes of macro molecular assemblies by multiparticle cryo-EM. Curr. Opin. Struct. Biol. 19, 623-631 (2009).
-
(2009)
Curr. Opin. Struct. Biol.
, vol.19
, pp. 623-631
-
-
Spahn, C.M.1
Penczek, P.A.2
-
35
-
-
51349114071
-
Anew tRNA in termediate revealed on the ribosome during EF4-mediated back-translocation
-
Connell, S. R. et al. Anew tRNA in termediate revealed on the ribosome during EF4-mediated back-translocation. Nature Struct. Mol. Biol. 15, 910-915 (2008).
-
(2008)
Nature Struct. Mol. Biol.
, vol.15
, pp. 910-915
-
-
Connell, S.R.1
-
36
-
-
63449135082
-
An all-atom structure-based potential for proteins: Bridging minimal models withall-atom empirical forcefields
-
Whitford, P. C. et al. An all-atom structure-based potential for proteins: bridging minimal models withall-atom empirical forcefields. Proteins75, 430-441 (2009).
-
(2009)
Proteins
, vol.75
, pp. 430-441
-
-
Whitford, P.C.1
-
37
-
-
58849122772
-
Nonlocal helix formation is key to understanding Sadenosyl methionine-1 riboswitch function
-
Whitford, P. C. et al. Nonlocal helix formation is key to understanding Sadenosyl methionine-1 riboswitch function. Biophys. J. 96, L7-L9 (2009).
-
(2009)
Biophys. J.
, vol.96
-
-
Whitford, P.C.1
-
38
-
-
58749105833
-
Flexible fitting of high-resolution X-ray structures into cryoelectron microscopy maps using biased molecular dynamics simulations
-
Orzechowski, M. & Tama, F. Flexible fitting of high-resolution X-ray structures into cryoelectron microscopy maps using biased molecular dynamics simulations. Biophys. J. 95, 5692-5705 (2008).
-
(2008)
Biophys. J.
, vol.95
, pp. 5692-5705
-
-
Orzechowski, M.1
Tama, F.2
-
39
-
-
0035789518
-
GROMACS 3.0: A package for molecular simulation and trajectory analysis
-
Lindahl, E., Hess, B. & van der Spoel, D. J.GROMACS 3.0: a package for molecular simulation and trajectory analysis. J. Mol. Model. 7, 306-317 (2001).
-
(2001)
J. Mol. Model.
, vol.7
, pp. 306-317
-
-
Lindahl, E.1
Hess, B.2
Van Der Spoel, D.J.3
-
40
-
-
0029633168
-
GROMACS: A message-passing parall elmolecular dynamic simple mentation
-
Berendsen, H. J. C., van der Spoel, D. & van Drunen, R. GROMACS: a message-passing parall elmolecular dynamic simple mentation. Comput. Phys. Commun. 91, 43-56 (1995).
-
(1995)
Comput. Phys. Commun.
, vol.91
, pp. 43-56
-
-
Berendsen, H.J.C.1
Van Der Spoel, D.2
Van Drunen, R.3
-
41
-
-
2342441328
-
From structure and dynamics of protein L7/L12tomolecular switching in ribosome
-
Bocharov,E.V.et al. From structure and dynamics of protein L7/L12tomolecular switching in ribosome. J. Biol. Chem. 279, 17697-17706 (2004).
-
(2004)
J. Biol. Chem.
, vol.279
, pp. 17697-17706
-
-
Bocharov, E.V.1
-
42
-
-
0029878720
-
VMD: Visual molecular dynamics
-
Humphrey, W., Dalke, A. & Schulten, K. VMD: visual molecular dynamics. J. Mol. Graph. 14, 33-38 (1996).
-
(1996)
J. Mol. Graph.
, vol.14
, pp. 33-38
-
-
Humphrey, W.1
Dalke, A.2
Schulten, K.3
|